Multiple sequence alignment - TraesCS5D01G229700

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Download Multiple Sequence Alignment: (Fasta) (Clustal)


BLAST Results


Shown here are the results of a BLAST search against the genome using the input sequence. The pipeline uses this to extract flanking regions for cloning. If the result of the multiple sequence alignment is not as expected, these results could be used for further investigation.

qseqid sseqid percentage.identical alignment.length no.mismatch no.gap.openings qstart qend sstart send evalue bitscore
0 TraesCS5D01G229700 chr5D 100.000 3875 0 0 1 3875 336779006 336775132 0.000000e+00 7156.0
1 TraesCS5D01G229700 chr5D 97.134 663 14 1 1 658 14027832 14028494 0.000000e+00 1114.0
2 TraesCS5D01G229700 chr5D 96.386 664 17 3 1 658 476615527 476616189 0.000000e+00 1086.0
3 TraesCS5D01G229700 chr5D 96.229 663 19 2 1 658 212483687 212484348 0.000000e+00 1081.0
4 TraesCS5D01G229700 chr5B 92.733 2064 95 20 1112 3163 394983902 394981882 0.000000e+00 2929.0
5 TraesCS5D01G229700 chr5B 91.111 405 17 12 739 1136 394984318 394983926 7.370000e-147 531.0
6 TraesCS5D01G229700 chr5B 86.553 409 29 11 3243 3628 394981837 394981432 9.950000e-116 427.0
7 TraesCS5D01G229700 chr5A 94.275 1869 76 9 1112 2955 438155862 438154000 0.000000e+00 2830.0
8 TraesCS5D01G229700 chr5A 83.461 653 66 22 3231 3870 438153307 438152684 1.560000e-158 569.0
9 TraesCS5D01G229700 chr5A 92.997 357 3 8 784 1136 438156230 438155892 5.780000e-138 501.0
10 TraesCS5D01G229700 chr5A 85.714 231 18 7 2974 3201 438153957 438153739 3.010000e-56 230.0
11 TraesCS5D01G229700 chr3D 96.833 663 16 1 1 658 475028416 475029078 0.000000e+00 1103.0
12 TraesCS5D01G229700 chr3D 95.928 663 21 2 1 658 16259411 16258750 0.000000e+00 1070.0
13 TraesCS5D01G229700 chr7D 96.375 662 20 1 1 658 254586617 254587278 0.000000e+00 1086.0
14 TraesCS5D01G229700 chr7D 95.928 663 21 2 1 658 114592056 114591395 0.000000e+00 1070.0
15 TraesCS5D01G229700 chr6D 96.078 663 20 2 1 658 407228967 407229628 0.000000e+00 1075.0
16 TraesCS5D01G229700 chr2A 96.078 663 21 1 1 658 692949655 692950317 0.000000e+00 1075.0
17 TraesCS5D01G229700 chr2A 89.610 77 6 2 659 735 728065168 728065094 3.190000e-16 97.1
18 TraesCS5D01G229700 chr3A 92.683 328 21 2 1565 1892 695949812 695950136 1.630000e-128 470.0
19 TraesCS5D01G229700 chr3A 91.429 70 4 1 666 735 122308 122375 1.150000e-15 95.3
20 TraesCS5D01G229700 chr7A 90.854 328 27 2 1565 1892 660037773 660037449 1.650000e-118 436.0
21 TraesCS5D01G229700 chr6A 87.500 328 22 9 1565 1892 420599153 420599461 1.020000e-95 361.0
22 TraesCS5D01G229700 chr7B 93.617 94 6 0 1799 1892 23419035 23419128 1.450000e-29 141.0
23 TraesCS5D01G229700 chr2D 90.909 77 4 2 660 735 631058501 631058427 2.460000e-17 100.0
24 TraesCS5D01G229700 chr1B 88.571 70 6 2 666 735 679453047 679453114 2.480000e-12 84.2
25 TraesCS5D01G229700 chr1A 90.566 53 5 0 668 720 387837989 387837937 1.930000e-08 71.3


These results show the homologous regions that are presented in the multiple sequence alignment. HSPs from the BLAST search that are within 2000 bases of each other have been grouped together. Homologous regions that are purely upstream or downstream may be removed if they don't overlap both primers.

query scaffold start end length rev.comp avg.bitscore max.bitscore avg.percent.identical query.start query.end num_hsp groupid homo_length
0 TraesCS5D01G229700 chr5D 336775132 336779006 3874 True 7156.000000 7156 100.000000 1 3875 1 chr5D.!!$R1 3874
1 TraesCS5D01G229700 chr5D 14027832 14028494 662 False 1114.000000 1114 97.134000 1 658 1 chr5D.!!$F1 657
2 TraesCS5D01G229700 chr5D 476615527 476616189 662 False 1086.000000 1086 96.386000 1 658 1 chr5D.!!$F3 657
3 TraesCS5D01G229700 chr5D 212483687 212484348 661 False 1081.000000 1081 96.229000 1 658 1 chr5D.!!$F2 657
4 TraesCS5D01G229700 chr5B 394981432 394984318 2886 True 1295.666667 2929 90.132333 739 3628 3 chr5B.!!$R1 2889
5 TraesCS5D01G229700 chr5A 438152684 438156230 3546 True 1032.500000 2830 89.111750 784 3870 4 chr5A.!!$R1 3086
6 TraesCS5D01G229700 chr3D 475028416 475029078 662 False 1103.000000 1103 96.833000 1 658 1 chr3D.!!$F1 657
7 TraesCS5D01G229700 chr3D 16258750 16259411 661 True 1070.000000 1070 95.928000 1 658 1 chr3D.!!$R1 657
8 TraesCS5D01G229700 chr7D 254586617 254587278 661 False 1086.000000 1086 96.375000 1 658 1 chr7D.!!$F1 657
9 TraesCS5D01G229700 chr7D 114591395 114592056 661 True 1070.000000 1070 95.928000 1 658 1 chr7D.!!$R1 657
10 TraesCS5D01G229700 chr6D 407228967 407229628 661 False 1075.000000 1075 96.078000 1 658 1 chr6D.!!$F1 657
11 TraesCS5D01G229700 chr2A 692949655 692950317 662 False 1075.000000 1075 96.078000 1 658 1 chr2A.!!$F1 657

AutoCloner calculated primer pairs

These primer pairs were selected by Autocloner to minimize primer penalty (calculated by Primer3), whilst remaining within the specified product range where possible.

Download AutoCloner chosen primers as CSV: (Forward) (Reverse)
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
683 692 0.037160 GCCCTACCCAAACGGAAAGA 59.963 55.0 0.0 0.0 34.64 2.52 F
705 714 0.231279 CCAGACAAAACGAACGTCCG 59.769 55.0 0.0 0.0 0.00 4.79 F
954 970 0.324183 TCACTCTCTCCCTCTGCTGG 60.324 60.0 0.0 0.0 0.00 4.85 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1935 2028 2.122167 CGAGGAGGGGTCGAAGAGG 61.122 68.421 0.00 0.0 39.92 3.69 R
2286 2382 2.269241 GAGCCGGACTCCTTTGGG 59.731 66.667 5.05 0.0 39.75 4.12 R
2908 3014 0.314259 GATATTCACACGCGCACACG 60.314 55.000 5.73 0.0 44.07 4.49 R

All possible primers

Listed here are all possible primers based on the multiple sequence alignment and SNPs generated previously. A lower penalty score indicates a better primer. If the AutoCloner primers did not work during PCR or sequencing, these could be used as alternatives.

Download all possible primers: (Forward) (Reverse)
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
335 337 6.677781 TCGACCAAGGATTTGATTATCAAC 57.322 37.500 7.19 0.00 35.89 3.18
658 667 0.678048 GACAGACAGGATGGGGCAAC 60.678 60.000 0.00 0.00 43.62 4.17
672 681 4.355151 CAACCCATTGCCCTACCC 57.645 61.111 0.00 0.00 0.00 3.69
673 682 1.386155 CAACCCATTGCCCTACCCA 59.614 57.895 0.00 0.00 0.00 4.51
674 683 0.252012 CAACCCATTGCCCTACCCAA 60.252 55.000 0.00 0.00 0.00 4.12
675 684 0.489567 AACCCATTGCCCTACCCAAA 59.510 50.000 0.00 0.00 0.00 3.28
676 685 0.252057 ACCCATTGCCCTACCCAAAC 60.252 55.000 0.00 0.00 0.00 2.93
677 686 1.319614 CCCATTGCCCTACCCAAACG 61.320 60.000 0.00 0.00 0.00 3.60
678 687 1.319614 CCATTGCCCTACCCAAACGG 61.320 60.000 0.00 0.00 37.81 4.44
679 688 0.322997 CATTGCCCTACCCAAACGGA 60.323 55.000 0.00 0.00 34.64 4.69
680 689 0.406361 ATTGCCCTACCCAAACGGAA 59.594 50.000 0.00 0.00 34.64 4.30
681 690 0.185416 TTGCCCTACCCAAACGGAAA 59.815 50.000 0.00 0.00 34.64 3.13
682 691 0.250989 TGCCCTACCCAAACGGAAAG 60.251 55.000 0.00 0.00 34.64 2.62
683 692 0.037160 GCCCTACCCAAACGGAAAGA 59.963 55.000 0.00 0.00 34.64 2.52
684 693 1.546099 GCCCTACCCAAACGGAAAGAA 60.546 52.381 0.00 0.00 34.64 2.52
685 694 2.866351 CCCTACCCAAACGGAAAGAAA 58.134 47.619 0.00 0.00 34.64 2.52
686 695 2.555325 CCCTACCCAAACGGAAAGAAAC 59.445 50.000 0.00 0.00 34.64 2.78
687 696 2.555325 CCTACCCAAACGGAAAGAAACC 59.445 50.000 0.00 0.00 34.64 3.27
688 697 2.146920 ACCCAAACGGAAAGAAACCA 57.853 45.000 0.00 0.00 34.64 3.67
689 698 2.028876 ACCCAAACGGAAAGAAACCAG 58.971 47.619 0.00 0.00 34.64 4.00
690 699 2.303175 CCCAAACGGAAAGAAACCAGA 58.697 47.619 0.00 0.00 0.00 3.86
691 700 2.034179 CCCAAACGGAAAGAAACCAGAC 59.966 50.000 0.00 0.00 0.00 3.51
692 701 2.685897 CCAAACGGAAAGAAACCAGACA 59.314 45.455 0.00 0.00 0.00 3.41
693 702 3.129638 CCAAACGGAAAGAAACCAGACAA 59.870 43.478 0.00 0.00 0.00 3.18
694 703 4.381079 CCAAACGGAAAGAAACCAGACAAA 60.381 41.667 0.00 0.00 0.00 2.83
695 704 5.164954 CAAACGGAAAGAAACCAGACAAAA 58.835 37.500 0.00 0.00 0.00 2.44
696 705 4.365899 ACGGAAAGAAACCAGACAAAAC 57.634 40.909 0.00 0.00 0.00 2.43
697 706 3.181504 ACGGAAAGAAACCAGACAAAACG 60.182 43.478 0.00 0.00 0.00 3.60
698 707 3.064271 CGGAAAGAAACCAGACAAAACGA 59.936 43.478 0.00 0.00 0.00 3.85
699 708 4.437659 CGGAAAGAAACCAGACAAAACGAA 60.438 41.667 0.00 0.00 0.00 3.85
700 709 4.796830 GGAAAGAAACCAGACAAAACGAAC 59.203 41.667 0.00 0.00 0.00 3.95
701 710 3.668596 AGAAACCAGACAAAACGAACG 57.331 42.857 0.00 0.00 0.00 3.95
702 711 3.004862 AGAAACCAGACAAAACGAACGT 58.995 40.909 0.00 0.00 0.00 3.99
703 712 3.063045 AGAAACCAGACAAAACGAACGTC 59.937 43.478 0.00 0.00 0.00 4.34
704 713 1.292992 ACCAGACAAAACGAACGTCC 58.707 50.000 0.00 0.00 0.00 4.79
705 714 0.231279 CCAGACAAAACGAACGTCCG 59.769 55.000 0.00 0.00 0.00 4.79
706 715 0.925466 CAGACAAAACGAACGTCCGT 59.075 50.000 0.00 0.00 45.64 4.69
712 721 4.331356 ACGAACGTCCGTTTGAGG 57.669 55.556 22.79 8.87 40.89 3.86
713 722 1.438814 ACGAACGTCCGTTTGAGGT 59.561 52.632 22.79 9.40 43.67 3.85
714 723 0.595825 ACGAACGTCCGTTTGAGGTC 60.596 55.000 22.79 2.38 41.06 3.85
715 724 1.602877 CGAACGTCCGTTTGAGGTCG 61.603 60.000 13.27 4.69 45.67 4.79
716 725 1.883725 GAACGTCCGTTTGAGGTCGC 61.884 60.000 6.52 0.00 44.45 5.19
717 726 3.467119 CGTCCGTTTGAGGTCGCG 61.467 66.667 0.00 0.00 36.21 5.87
718 727 3.774702 GTCCGTTTGAGGTCGCGC 61.775 66.667 0.00 0.00 0.00 6.86
734 743 4.452733 GCGCGGTAGAGTTGGCCT 62.453 66.667 8.83 0.00 0.00 5.19
735 744 2.509336 CGCGGTAGAGTTGGCCTG 60.509 66.667 3.32 0.00 0.00 4.85
736 745 2.978824 GCGGTAGAGTTGGCCTGA 59.021 61.111 3.32 0.00 0.00 3.86
737 746 1.295423 GCGGTAGAGTTGGCCTGAA 59.705 57.895 3.32 0.00 0.00 3.02
755 764 1.141858 GAATGACCTCCCTCCATCCAC 59.858 57.143 0.00 0.00 0.00 4.02
756 765 0.344790 ATGACCTCCCTCCATCCACT 59.655 55.000 0.00 0.00 0.00 4.00
757 766 0.325671 TGACCTCCCTCCATCCACTC 60.326 60.000 0.00 0.00 0.00 3.51
944 960 3.513209 CCCCCTCTCTCACTCTCTC 57.487 63.158 0.00 0.00 0.00 3.20
954 970 0.324183 TCACTCTCTCCCTCTGCTGG 60.324 60.000 0.00 0.00 0.00 4.85
971 987 2.267324 GCAGGGGAGTGAGTGAGC 59.733 66.667 0.00 0.00 0.00 4.26
985 1006 2.435059 GAGCTGAGGTTGGTCGCC 60.435 66.667 0.00 0.00 0.00 5.54
1115 1190 3.193691 TCAAGTGAGTTCCTCGATTCTCC 59.806 47.826 0.00 0.00 32.35 3.71
1117 1192 1.825474 GTGAGTTCCTCGATTCTCCCA 59.175 52.381 0.00 0.00 32.35 4.37
1134 1209 2.771943 TCCCACTCTCTCTCTCTCTCTC 59.228 54.545 0.00 0.00 0.00 3.20
1142 1217 4.536090 TCTCTCTCTCTCTCTCTTCCACTT 59.464 45.833 0.00 0.00 0.00 3.16
1201 1277 0.464735 TGAGAGAGGACTAGAGCGCC 60.465 60.000 2.29 0.00 0.00 6.53
1216 1292 4.319177 AGAGCGCCAGATTATAATGGTTC 58.681 43.478 2.29 1.53 38.91 3.62
1234 1310 6.485830 TGGTTCTGGGAGTAGATTCTATTG 57.514 41.667 0.00 0.00 0.00 1.90
1252 1343 0.821711 TGCCCTTTTTGACCGACTGG 60.822 55.000 0.00 0.00 42.84 4.00
1298 1389 0.523335 GTTTCCATTCACGGCGATGC 60.523 55.000 16.62 0.00 0.00 3.91
1320 1411 4.858680 TGCAAACGGACCGTGGCA 62.859 61.111 31.34 31.34 44.29 4.92
1747 1840 2.685387 CTACGGGCTGATCAGGTCGC 62.685 65.000 23.89 14.67 0.00 5.19
1935 2028 4.767255 CACGACCAGCAGGAGCCC 62.767 72.222 0.35 0.00 43.56 5.19
1947 2040 3.471806 GAGCCCCTCTTCGACCCC 61.472 72.222 0.00 0.00 0.00 4.95
1950 2043 2.764547 CCCCTCTTCGACCCCTCC 60.765 72.222 0.00 0.00 0.00 4.30
1951 2044 2.364961 CCCTCTTCGACCCCTCCT 59.635 66.667 0.00 0.00 0.00 3.69
2286 2382 1.222113 GTTCTCCTACTGCCTGCCC 59.778 63.158 0.00 0.00 0.00 5.36
2289 2385 4.346889 TCCTACTGCCTGCCCCCA 62.347 66.667 0.00 0.00 0.00 4.96
2414 2510 0.181350 GGGCCCTTCTACATGGTCAG 59.819 60.000 17.04 0.00 0.00 3.51
2433 2529 2.105128 CTGACCGGGATCAGCGTC 59.895 66.667 6.32 0.00 39.77 5.19
2467 2563 4.698625 AGTCCCCGGGCTTCTCGT 62.699 66.667 17.73 0.00 0.00 4.18
2891 2996 5.185635 ACATTTGATTTGACCGTGGATCATT 59.814 36.000 0.00 0.00 0.00 2.57
2960 3066 3.625764 GGATTTGTTTTGGGATCGATCGA 59.374 43.478 21.86 21.86 0.00 3.59
3012 3142 7.055378 TGGCAATACGGTATTTAGTTATTGGT 58.945 34.615 10.59 0.00 0.00 3.67
3026 3156 9.632807 TTTAGTTATTGGTAAATGTACGTACGT 57.367 29.630 25.98 25.98 0.00 3.57
3051 3181 7.744087 ACAAGCATTTGTAGTAGTTGATTGA 57.256 32.000 6.25 0.00 45.45 2.57
3141 3277 0.909133 TGTGCCCTGGTGCTGATAGA 60.909 55.000 8.32 0.00 0.00 1.98
3158 3294 6.166984 TGATAGAGGAGATGATTGTGGAAC 57.833 41.667 0.00 0.00 37.35 3.62
3173 3309 0.398318 GGAACTGTCCTGTGCTTCCT 59.602 55.000 0.00 0.00 41.24 3.36
3185 3321 1.130561 GTGCTTCCTGGCGTATGAAAC 59.869 52.381 0.00 0.00 34.52 2.78
3203 3339 6.600882 TGAAACGGAGAAAGTAATACTCCT 57.399 37.500 0.00 0.00 45.40 3.69
3205 3341 7.542025 TGAAACGGAGAAAGTAATACTCCTAC 58.458 38.462 0.00 0.00 45.40 3.18
3207 3343 8.814038 AAACGGAGAAAGTAATACTCCTACTA 57.186 34.615 0.00 0.00 45.40 1.82
3208 3344 8.449251 AACGGAGAAAGTAATACTCCTACTAG 57.551 38.462 0.00 0.00 45.40 2.57
3210 3346 8.709308 ACGGAGAAAGTAATACTCCTACTAGTA 58.291 37.037 1.89 1.89 45.40 1.82
3211 3347 9.206870 CGGAGAAAGTAATACTCCTACTAGTAG 57.793 40.741 21.11 21.11 45.40 2.57
3221 3357 9.841295 AATACTCCTACTAGTAGAACTCTTCAG 57.159 37.037 28.07 10.36 35.50 3.02
3222 3358 6.655930 ACTCCTACTAGTAGAACTCTTCAGG 58.344 44.000 28.07 12.32 35.21 3.86
3224 3360 5.730207 TCCTACTAGTAGAACTCTTCAGGGA 59.270 44.000 28.07 12.20 35.21 4.20
3225 3361 6.217074 TCCTACTAGTAGAACTCTTCAGGGAA 59.783 42.308 28.07 0.00 35.21 3.97
3226 3362 6.890814 CCTACTAGTAGAACTCTTCAGGGAAA 59.109 42.308 28.07 0.00 35.21 3.13
3227 3363 6.844097 ACTAGTAGAACTCTTCAGGGAAAG 57.156 41.667 3.59 0.00 0.00 2.62
3245 3783 0.896940 AGAGGTTGTGCAATGCCAGG 60.897 55.000 1.53 0.00 0.00 4.45
3266 3805 1.354337 CTGCAAGATCACGTGACGGG 61.354 60.000 22.71 5.01 34.07 5.28
3279 3818 1.215647 GACGGGTGCAGTGGTAGAG 59.784 63.158 0.00 0.00 0.00 2.43
3302 3841 4.340381 GCATTTTTCATGTAGCTGAGGGAT 59.660 41.667 0.00 0.00 0.00 3.85
3324 3863 9.767228 GGGATGAATGATAGATCTCAGATTATG 57.233 37.037 0.00 0.00 0.00 1.90
3477 4020 7.826260 ACTGTAACAACAAAAACAAATCCTG 57.174 32.000 0.00 0.00 0.00 3.86
3501 4044 2.597510 AACCAAGCGCTGGGTTCC 60.598 61.111 38.35 0.00 46.07 3.62
3521 4064 4.355549 TCCCCGTGGATACTCTCTTTTTA 58.644 43.478 0.00 0.00 35.03 1.52
3522 4065 4.966805 TCCCCGTGGATACTCTCTTTTTAT 59.033 41.667 0.00 0.00 35.03 1.40
3523 4066 5.057149 CCCCGTGGATACTCTCTTTTTATG 58.943 45.833 0.00 0.00 37.61 1.90
3524 4067 4.511826 CCCGTGGATACTCTCTTTTTATGC 59.488 45.833 0.00 0.00 37.61 3.14
3525 4068 5.360591 CCGTGGATACTCTCTTTTTATGCT 58.639 41.667 0.00 0.00 37.61 3.79
3527 4070 6.421202 CCGTGGATACTCTCTTTTTATGCTAC 59.579 42.308 0.00 0.00 37.61 3.58
3528 4071 7.203910 CGTGGATACTCTCTTTTTATGCTACT 58.796 38.462 0.00 0.00 37.61 2.57
3531 4091 8.417106 TGGATACTCTCTTTTTATGCTACTCTG 58.583 37.037 0.00 0.00 37.61 3.35
3556 4116 3.502211 AGAAAACGAGTGCATTTACCCTG 59.498 43.478 0.00 0.00 0.00 4.45
3560 4120 3.074412 ACGAGTGCATTTACCCTGAAAG 58.926 45.455 0.00 0.00 0.00 2.62
3573 4134 2.554032 CCCTGAAAGAAACGAGTGCATT 59.446 45.455 0.00 0.00 34.07 3.56
3634 4195 0.794473 GTGGCCGTAAGTTGCACTAC 59.206 55.000 0.00 0.00 0.00 2.73
3635 4196 0.393448 TGGCCGTAAGTTGCACTACA 59.607 50.000 0.00 0.00 0.00 2.74
3651 4212 6.616947 TGCACTACATAATTTGTAAACCAGC 58.383 36.000 0.00 0.00 40.27 4.85
3652 4213 5.737290 GCACTACATAATTTGTAAACCAGCG 59.263 40.000 0.00 0.00 40.27 5.18
3661 4227 3.188159 TGTAAACCAGCGAAAGTCTGT 57.812 42.857 0.00 0.00 34.76 3.41
3665 4231 5.585445 TGTAAACCAGCGAAAGTCTGTAAAA 59.415 36.000 0.00 0.00 34.76 1.52
3669 4235 3.120991 CCAGCGAAAGTCTGTAAAACTCG 60.121 47.826 0.00 0.00 34.76 4.18
3675 4241 5.675444 CGAAAGTCTGTAAAACTCGGTTTTG 59.325 40.000 18.90 7.79 44.09 2.44
3694 4260 6.073276 GGTTTTGCCATGATGGTTAAGTTTTC 60.073 38.462 13.84 0.00 40.46 2.29
3698 4264 5.095490 GCCATGATGGTTAAGTTTTCGAAG 58.905 41.667 13.84 0.00 40.46 3.79
3715 4281 3.119280 TCGAAGATGATAACTGGCGAACA 60.119 43.478 0.00 0.00 0.00 3.18
3716 4282 3.804325 CGAAGATGATAACTGGCGAACAT 59.196 43.478 0.00 0.00 0.00 2.71
3718 4284 4.406648 AGATGATAACTGGCGAACATCA 57.593 40.909 0.00 0.00 37.27 3.07
3719 4285 4.375272 AGATGATAACTGGCGAACATCAG 58.625 43.478 0.00 0.00 37.27 2.90
3720 4286 2.279741 TGATAACTGGCGAACATCAGC 58.720 47.619 0.00 0.00 34.57 4.26
3721 4287 2.093500 TGATAACTGGCGAACATCAGCT 60.093 45.455 0.00 0.00 34.57 4.24
3722 4288 1.725641 TAACTGGCGAACATCAGCTG 58.274 50.000 7.63 7.63 34.57 4.24
3723 4289 0.035317 AACTGGCGAACATCAGCTGA 59.965 50.000 20.79 20.79 34.57 4.26
3724 4290 0.390866 ACTGGCGAACATCAGCTGAG 60.391 55.000 22.96 15.84 34.57 3.35
3725 4291 0.108472 CTGGCGAACATCAGCTGAGA 60.108 55.000 22.96 0.00 0.00 3.27
3726 4292 0.108472 TGGCGAACATCAGCTGAGAG 60.108 55.000 22.96 18.65 0.00 3.20
3727 4293 0.809241 GGCGAACATCAGCTGAGAGG 60.809 60.000 22.96 15.85 0.00 3.69
3728 4294 0.108424 GCGAACATCAGCTGAGAGGT 60.108 55.000 22.96 15.75 33.37 3.85
3737 4303 0.252479 AGCTGAGAGGTGATGGCAAG 59.748 55.000 0.00 0.00 0.00 4.01
3738 4304 1.375098 GCTGAGAGGTGATGGCAAGC 61.375 60.000 0.00 0.00 0.00 4.01
3742 4308 0.254178 AGAGGTGATGGCAAGCGAAT 59.746 50.000 0.00 0.00 0.00 3.34
3745 4311 1.065491 AGGTGATGGCAAGCGAATGTA 60.065 47.619 0.00 0.00 0.00 2.29
3747 4313 2.358898 GGTGATGGCAAGCGAATGTATT 59.641 45.455 0.00 0.00 0.00 1.89
3751 4317 6.033341 GTGATGGCAAGCGAATGTATTTTTA 58.967 36.000 0.00 0.00 0.00 1.52
3752 4318 6.197096 GTGATGGCAAGCGAATGTATTTTTAG 59.803 38.462 0.00 0.00 0.00 1.85
3763 4329 9.058424 GCGAATGTATTTTTAGACAACTTTACC 57.942 33.333 0.00 0.00 0.00 2.85
3774 4340 8.667076 TTAGACAACTTTACCTGGTAAAAGAC 57.333 34.615 26.99 19.84 37.51 3.01
3775 4341 6.896883 AGACAACTTTACCTGGTAAAAGACT 58.103 36.000 26.99 21.21 37.51 3.24
3776 4342 8.026396 AGACAACTTTACCTGGTAAAAGACTA 57.974 34.615 26.99 9.30 37.51 2.59
3778 4344 7.567458 ACAACTTTACCTGGTAAAAGACTACA 58.433 34.615 26.99 8.02 37.51 2.74
3786 4352 5.123979 CCTGGTAAAAGACTACAAATCCTGC 59.876 44.000 0.00 0.00 0.00 4.85
3787 4353 5.007682 TGGTAAAAGACTACAAATCCTGCC 58.992 41.667 0.00 0.00 0.00 4.85
3788 4354 4.398358 GGTAAAAGACTACAAATCCTGCCC 59.602 45.833 0.00 0.00 0.00 5.36
3789 4355 4.388577 AAAAGACTACAAATCCTGCCCT 57.611 40.909 0.00 0.00 0.00 5.19
3817 4383 3.245797 GCCGCAAAATTTCTCTTCTTCC 58.754 45.455 0.00 0.00 0.00 3.46
3818 4384 3.057245 GCCGCAAAATTTCTCTTCTTCCT 60.057 43.478 0.00 0.00 0.00 3.36
3825 4391 9.920133 GCAAAATTTCTCTTCTTCCTAGAATTT 57.080 29.630 0.00 0.00 39.58 1.82
3831 4397 9.799106 TTTCTCTTCTTCCTAGAATTTTCATGT 57.201 29.630 0.00 0.00 39.58 3.21
3833 4399 7.335422 TCTCTTCTTCCTAGAATTTTCATGTGC 59.665 37.037 0.00 0.00 39.58 4.57
3836 4402 7.383102 TCTTCCTAGAATTTTCATGTGCTTC 57.617 36.000 0.00 0.00 0.00 3.86
3839 4405 6.240894 TCCTAGAATTTTCATGTGCTTCTGT 58.759 36.000 0.00 0.00 0.00 3.41
3840 4406 7.394016 TCCTAGAATTTTCATGTGCTTCTGTA 58.606 34.615 0.00 0.00 0.00 2.74
3843 4409 7.138692 AGAATTTTCATGTGCTTCTGTAGAC 57.861 36.000 0.00 0.00 0.00 2.59
3845 4411 7.392673 AGAATTTTCATGTGCTTCTGTAGACAT 59.607 33.333 0.00 0.00 0.00 3.06
3848 4414 4.898320 TCATGTGCTTCTGTAGACATTGT 58.102 39.130 0.00 0.00 0.00 2.71
3852 4418 5.308014 TGTGCTTCTGTAGACATTGTCAAT 58.692 37.500 18.57 1.87 34.60 2.57
3856 4423 5.412594 GCTTCTGTAGACATTGTCAATCCAA 59.587 40.000 18.57 5.25 34.60 3.53
3866 4433 7.920682 AGACATTGTCAATCCAAACAACTAAAC 59.079 33.333 18.57 0.00 38.14 2.01
3870 4437 6.039616 TGTCAATCCAAACAACTAAACTTGC 58.960 36.000 0.00 0.00 0.00 4.01
3871 4438 5.462068 GTCAATCCAAACAACTAAACTTGCC 59.538 40.000 0.00 0.00 0.00 4.52
3872 4439 5.127845 TCAATCCAAACAACTAAACTTGCCA 59.872 36.000 0.00 0.00 0.00 4.92
3873 4440 4.379339 TCCAAACAACTAAACTTGCCAC 57.621 40.909 0.00 0.00 0.00 5.01
3874 4441 3.131400 TCCAAACAACTAAACTTGCCACC 59.869 43.478 0.00 0.00 0.00 4.61
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
143 144 5.825593 TCCACATCCTTTCTAACACTCTT 57.174 39.130 0.00 0.00 0.00 2.85
335 337 3.119531 TGCAAGGGCTCAATATTTTCACG 60.120 43.478 0.00 0.00 41.91 4.35
625 634 3.885297 CTGTCTGTCAGGACCAAAAATGT 59.115 43.478 0.00 0.00 40.23 2.71
642 651 3.090765 GGTTGCCCCATCCTGTCT 58.909 61.111 0.00 0.00 0.00 3.41
658 667 1.319614 CGTTTGGGTAGGGCAATGGG 61.320 60.000 0.00 0.00 0.00 4.00
659 668 1.319614 CCGTTTGGGTAGGGCAATGG 61.320 60.000 0.00 0.00 0.00 3.16
660 669 0.322997 TCCGTTTGGGTAGGGCAATG 60.323 55.000 0.00 0.00 37.00 2.82
661 670 0.406361 TTCCGTTTGGGTAGGGCAAT 59.594 50.000 0.00 0.00 37.00 3.56
662 671 0.185416 TTTCCGTTTGGGTAGGGCAA 59.815 50.000 0.00 0.00 37.00 4.52
663 672 0.250989 CTTTCCGTTTGGGTAGGGCA 60.251 55.000 0.00 0.00 37.00 5.36
664 673 0.037160 TCTTTCCGTTTGGGTAGGGC 59.963 55.000 0.00 0.00 37.00 5.19
665 674 2.555325 GTTTCTTTCCGTTTGGGTAGGG 59.445 50.000 0.00 0.00 37.00 3.53
666 675 2.555325 GGTTTCTTTCCGTTTGGGTAGG 59.445 50.000 0.00 0.00 37.00 3.18
667 676 3.215975 TGGTTTCTTTCCGTTTGGGTAG 58.784 45.455 0.00 0.00 37.00 3.18
668 677 3.117963 TCTGGTTTCTTTCCGTTTGGGTA 60.118 43.478 0.00 0.00 37.00 3.69
669 678 2.028876 CTGGTTTCTTTCCGTTTGGGT 58.971 47.619 0.00 0.00 37.00 4.51
670 679 2.034179 GTCTGGTTTCTTTCCGTTTGGG 59.966 50.000 0.00 0.00 35.24 4.12
671 680 2.685897 TGTCTGGTTTCTTTCCGTTTGG 59.314 45.455 0.00 0.00 0.00 3.28
672 681 4.364415 TTGTCTGGTTTCTTTCCGTTTG 57.636 40.909 0.00 0.00 0.00 2.93
673 682 5.165676 GTTTTGTCTGGTTTCTTTCCGTTT 58.834 37.500 0.00 0.00 0.00 3.60
674 683 4.673320 CGTTTTGTCTGGTTTCTTTCCGTT 60.673 41.667 0.00 0.00 0.00 4.44
675 684 3.181504 CGTTTTGTCTGGTTTCTTTCCGT 60.182 43.478 0.00 0.00 0.00 4.69
676 685 3.064271 TCGTTTTGTCTGGTTTCTTTCCG 59.936 43.478 0.00 0.00 0.00 4.30
677 686 4.625972 TCGTTTTGTCTGGTTTCTTTCC 57.374 40.909 0.00 0.00 0.00 3.13
678 687 4.494410 CGTTCGTTTTGTCTGGTTTCTTTC 59.506 41.667 0.00 0.00 0.00 2.62
679 688 4.083164 ACGTTCGTTTTGTCTGGTTTCTTT 60.083 37.500 0.00 0.00 0.00 2.52
680 689 3.437741 ACGTTCGTTTTGTCTGGTTTCTT 59.562 39.130 0.00 0.00 0.00 2.52
681 690 3.004862 ACGTTCGTTTTGTCTGGTTTCT 58.995 40.909 0.00 0.00 0.00 2.52
682 691 3.348309 GACGTTCGTTTTGTCTGGTTTC 58.652 45.455 0.00 0.00 0.00 2.78
683 692 2.096335 GGACGTTCGTTTTGTCTGGTTT 59.904 45.455 0.00 0.00 33.21 3.27
684 693 1.667212 GGACGTTCGTTTTGTCTGGTT 59.333 47.619 0.00 0.00 33.21 3.67
685 694 1.292992 GGACGTTCGTTTTGTCTGGT 58.707 50.000 0.00 0.00 33.21 4.00
686 695 0.231279 CGGACGTTCGTTTTGTCTGG 59.769 55.000 8.45 0.00 35.77 3.86
687 696 0.925466 ACGGACGTTCGTTTTGTCTG 59.075 50.000 18.05 0.00 40.85 3.51
688 697 3.350766 ACGGACGTTCGTTTTGTCT 57.649 47.368 18.05 0.00 40.85 3.41
695 704 0.595825 GACCTCAAACGGACGTTCGT 60.596 55.000 18.05 18.05 46.08 3.85
696 705 1.602877 CGACCTCAAACGGACGTTCG 61.603 60.000 16.31 16.31 37.35 3.95
697 706 1.883725 GCGACCTCAAACGGACGTTC 61.884 60.000 10.76 0.00 42.68 3.95
698 707 1.952635 GCGACCTCAAACGGACGTT 60.953 57.895 3.99 3.99 42.68 3.99
699 708 2.355481 GCGACCTCAAACGGACGT 60.355 61.111 0.00 0.00 42.68 4.34
700 709 3.467119 CGCGACCTCAAACGGACG 61.467 66.667 0.00 0.00 43.37 4.79
701 710 3.774702 GCGCGACCTCAAACGGAC 61.775 66.667 12.10 0.00 0.00 4.79
717 726 4.452733 AGGCCAACTCTACCGCGC 62.453 66.667 5.01 0.00 0.00 6.86
718 727 2.501223 TTCAGGCCAACTCTACCGCG 62.501 60.000 5.01 0.00 0.00 6.46
719 728 0.107654 ATTCAGGCCAACTCTACCGC 60.108 55.000 5.01 0.00 0.00 5.68
720 729 1.207089 TCATTCAGGCCAACTCTACCG 59.793 52.381 5.01 0.00 0.00 4.02
721 730 2.633488 GTCATTCAGGCCAACTCTACC 58.367 52.381 5.01 0.00 0.00 3.18
722 731 2.633488 GGTCATTCAGGCCAACTCTAC 58.367 52.381 5.01 0.00 43.39 2.59
724 733 3.965888 GGTCATTCAGGCCAACTCT 57.034 52.632 5.01 0.00 43.39 3.24
730 739 1.529309 GAGGGAGGTCATTCAGGCC 59.471 63.158 0.00 0.00 44.66 5.19
731 740 1.274703 TGGAGGGAGGTCATTCAGGC 61.275 60.000 0.00 0.00 0.00 4.85
732 741 1.419387 GATGGAGGGAGGTCATTCAGG 59.581 57.143 0.00 0.00 0.00 3.86
733 742 1.419387 GGATGGAGGGAGGTCATTCAG 59.581 57.143 0.00 0.00 0.00 3.02
734 743 1.274358 TGGATGGAGGGAGGTCATTCA 60.274 52.381 0.00 0.00 0.00 2.57
735 744 1.141858 GTGGATGGAGGGAGGTCATTC 59.858 57.143 0.00 0.00 0.00 2.67
736 745 1.216990 GTGGATGGAGGGAGGTCATT 58.783 55.000 0.00 0.00 0.00 2.57
737 746 0.344790 AGTGGATGGAGGGAGGTCAT 59.655 55.000 0.00 0.00 0.00 3.06
755 764 3.203412 CGAGGTCGGACGGAGGAG 61.203 72.222 1.43 0.00 35.37 3.69
937 953 1.685421 GCCAGCAGAGGGAGAGAGT 60.685 63.158 0.00 0.00 0.00 3.24
938 954 1.685077 TGCCAGCAGAGGGAGAGAG 60.685 63.158 0.00 0.00 0.00 3.20
939 955 2.446995 TGCCAGCAGAGGGAGAGA 59.553 61.111 0.00 0.00 0.00 3.10
942 958 3.795041 CCCTGCCAGCAGAGGGAG 61.795 72.222 21.01 3.67 46.30 4.30
954 970 2.267324 GCTCACTCACTCCCCTGC 59.733 66.667 0.00 0.00 0.00 4.85
971 987 2.125912 CTCGGCGACCAACCTCAG 60.126 66.667 4.99 0.00 0.00 3.35
985 1006 2.653448 CATCACTCGCTCGCCTCG 60.653 66.667 0.00 0.00 0.00 4.63
1115 1190 4.446371 GAAGAGAGAGAGAGAGAGAGTGG 58.554 52.174 0.00 0.00 0.00 4.00
1117 1192 4.080863 GTGGAAGAGAGAGAGAGAGAGAGT 60.081 50.000 0.00 0.00 0.00 3.24
1134 1209 6.488006 TGGAAAGAGAAATCAAGAAGTGGAAG 59.512 38.462 0.00 0.00 0.00 3.46
1142 1217 6.772605 TCATCACTGGAAAGAGAAATCAAGA 58.227 36.000 0.00 0.00 0.00 3.02
1201 1277 8.195165 TCTACTCCCAGAACCATTATAATCTG 57.805 38.462 6.78 6.78 39.16 2.90
1216 1292 3.906846 AGGGCAATAGAATCTACTCCCAG 59.093 47.826 19.01 0.00 35.03 4.45
1234 1310 1.524008 CCCAGTCGGTCAAAAAGGGC 61.524 60.000 0.00 0.00 0.00 5.19
1252 1343 1.785041 AATGTGTGCACACTGTCGCC 61.785 55.000 40.79 20.51 46.55 5.54
1254 1345 1.597690 CCAAATGTGTGCACACTGTCG 60.598 52.381 40.79 28.36 46.55 4.35
1265 1356 0.387565 GGAAACGCCACCAAATGTGT 59.612 50.000 0.00 0.00 43.85 3.72
1408 1499 2.504367 ACTTATGGCAAAAGCTCGTGT 58.496 42.857 0.00 0.00 0.00 4.49
1935 2028 2.122167 CGAGGAGGGGTCGAAGAGG 61.122 68.421 0.00 0.00 39.92 3.69
2286 2382 2.269241 GAGCCGGACTCCTTTGGG 59.731 66.667 5.05 0.00 39.75 4.12
2289 2385 2.971452 GACGAGCCGGACTCCTTT 59.029 61.111 5.05 0.00 43.01 3.11
2414 2510 4.899239 CGCTGATCCCGGTCAGGC 62.899 72.222 20.30 12.88 44.55 4.85
2487 2592 3.047718 GATCGTGCCGGAGTCGACA 62.048 63.158 19.50 0.00 39.00 4.35
2908 3014 0.314259 GATATTCACACGCGCACACG 60.314 55.000 5.73 0.00 44.07 4.49
3026 3156 8.840833 TCAATCAACTACTACAAATGCTTGTA 57.159 30.769 0.00 0.00 44.14 2.41
3047 3177 9.294614 AGAAGAAGAAAAACAAGCTAGATCAAT 57.705 29.630 0.00 0.00 0.00 2.57
3048 3178 8.682936 AGAAGAAGAAAAACAAGCTAGATCAA 57.317 30.769 0.00 0.00 0.00 2.57
3049 3179 8.682936 AAGAAGAAGAAAAACAAGCTAGATCA 57.317 30.769 0.00 0.00 0.00 2.92
3050 3180 8.998377 AGAAGAAGAAGAAAAACAAGCTAGATC 58.002 33.333 0.00 0.00 0.00 2.75
3051 3181 8.916628 AGAAGAAGAAGAAAAACAAGCTAGAT 57.083 30.769 0.00 0.00 0.00 1.98
3112 3248 1.206849 ACCAGGGCACACAAAAACAAG 59.793 47.619 0.00 0.00 0.00 3.16
3141 3277 3.054802 GGACAGTTCCACAATCATCTCCT 60.055 47.826 0.00 0.00 42.30 3.69
3158 3294 1.673665 GCCAGGAAGCACAGGACAG 60.674 63.158 0.00 0.00 0.00 3.51
3201 3337 6.003859 TCCCTGAAGAGTTCTACTAGTAGG 57.996 45.833 26.06 11.29 34.06 3.18
3203 3339 7.696981 TCTTTCCCTGAAGAGTTCTACTAGTA 58.303 38.462 1.89 1.89 32.19 1.82
3205 3341 7.095695 CTCTTTCCCTGAAGAGTTCTACTAG 57.904 44.000 6.50 0.00 44.82 2.57
3207 3343 5.993748 CTCTTTCCCTGAAGAGTTCTACT 57.006 43.478 6.50 0.00 44.82 2.57
3215 3351 2.487265 GCACAACCTCTTTCCCTGAAGA 60.487 50.000 0.00 0.00 34.63 2.87
3216 3352 1.882623 GCACAACCTCTTTCCCTGAAG 59.117 52.381 0.00 0.00 0.00 3.02
3217 3353 1.214175 TGCACAACCTCTTTCCCTGAA 59.786 47.619 0.00 0.00 0.00 3.02
3218 3354 0.843309 TGCACAACCTCTTTCCCTGA 59.157 50.000 0.00 0.00 0.00 3.86
3219 3355 1.691196 TTGCACAACCTCTTTCCCTG 58.309 50.000 0.00 0.00 0.00 4.45
3220 3356 2.242043 CATTGCACAACCTCTTTCCCT 58.758 47.619 0.00 0.00 0.00 4.20
3221 3357 1.337167 GCATTGCACAACCTCTTTCCC 60.337 52.381 3.15 0.00 0.00 3.97
3222 3358 1.337167 GGCATTGCACAACCTCTTTCC 60.337 52.381 11.39 0.00 0.00 3.13
3224 3360 1.342174 CTGGCATTGCACAACCTCTTT 59.658 47.619 11.39 0.00 0.00 2.52
3225 3361 0.963962 CTGGCATTGCACAACCTCTT 59.036 50.000 11.39 0.00 0.00 2.85
3226 3362 0.896940 CCTGGCATTGCACAACCTCT 60.897 55.000 11.39 0.00 0.00 3.69
3227 3363 1.588082 CCTGGCATTGCACAACCTC 59.412 57.895 11.39 0.00 0.00 3.85
3229 3365 2.658422 CCCTGGCATTGCACAACC 59.342 61.111 11.39 0.00 0.00 3.77
3245 3783 1.790387 GTCACGTGATCTTGCAGCC 59.210 57.895 23.12 0.96 0.00 4.85
3266 3805 3.253188 TGAAAAATGCTCTACCACTGCAC 59.747 43.478 0.00 0.00 39.63 4.57
3279 3818 3.696051 TCCCTCAGCTACATGAAAAATGC 59.304 43.478 0.00 0.00 0.00 3.56
3324 3863 0.750850 TACAGAATAGGCACGCCCTC 59.249 55.000 3.95 0.00 44.96 4.30
3465 4004 5.995446 TGGTTTAAAGGCAGGATTTGTTTT 58.005 33.333 0.00 0.00 0.00 2.43
3477 4020 0.388520 CCAGCGCTTGGTTTAAAGGC 60.389 55.000 7.50 0.00 42.41 4.35
3501 4044 4.511826 GCATAAAAAGAGAGTATCCACGGG 59.488 45.833 0.00 0.00 33.66 5.28
3511 4054 8.994429 TCTTTCAGAGTAGCATAAAAAGAGAG 57.006 34.615 0.00 0.00 30.28 3.20
3521 4064 5.406780 CACTCGTTTTCTTTCAGAGTAGCAT 59.593 40.000 0.00 0.00 39.82 3.79
3522 4065 4.745125 CACTCGTTTTCTTTCAGAGTAGCA 59.255 41.667 0.00 0.00 39.82 3.49
3523 4066 4.376514 GCACTCGTTTTCTTTCAGAGTAGC 60.377 45.833 0.00 0.66 39.82 3.58
3524 4067 4.745125 TGCACTCGTTTTCTTTCAGAGTAG 59.255 41.667 0.00 0.00 39.82 2.57
3525 4068 4.689071 TGCACTCGTTTTCTTTCAGAGTA 58.311 39.130 0.00 0.00 39.82 2.59
3527 4070 4.739046 ATGCACTCGTTTTCTTTCAGAG 57.261 40.909 0.00 0.00 35.28 3.35
3528 4071 5.499139 AAATGCACTCGTTTTCTTTCAGA 57.501 34.783 0.00 0.00 0.00 3.27
3531 4091 4.915667 GGGTAAATGCACTCGTTTTCTTTC 59.084 41.667 0.00 0.00 33.73 2.62
3634 4195 7.271223 CAGACTTTCGCTGGTTTACAAATTATG 59.729 37.037 0.00 0.00 0.00 1.90
3635 4196 7.040686 ACAGACTTTCGCTGGTTTACAAATTAT 60.041 33.333 0.00 0.00 37.69 1.28
3651 4212 5.399604 AAACCGAGTTTTACAGACTTTCG 57.600 39.130 0.00 0.00 31.10 3.46
3652 4213 5.454554 GCAAAACCGAGTTTTACAGACTTTC 59.545 40.000 12.42 0.00 42.78 2.62
3661 4227 4.321601 CCATCATGGCAAAACCGAGTTTTA 60.322 41.667 12.42 1.71 42.78 1.52
3665 4231 1.176527 CCATCATGGCAAAACCGAGT 58.823 50.000 0.00 0.00 43.94 4.18
3669 4235 4.535526 ACTTAACCATCATGGCAAAACC 57.464 40.909 2.52 0.00 42.67 3.27
3675 4241 4.695217 TCGAAAACTTAACCATCATGGC 57.305 40.909 2.52 0.00 42.67 4.40
3694 4260 3.186909 TGTTCGCCAGTTATCATCTTCG 58.813 45.455 0.00 0.00 0.00 3.79
3698 4264 3.059325 GCTGATGTTCGCCAGTTATCATC 60.059 47.826 0.00 0.00 33.19 2.92
3715 4281 0.469070 GCCATCACCTCTCAGCTGAT 59.531 55.000 18.63 0.00 0.00 2.90
3716 4282 0.906282 TGCCATCACCTCTCAGCTGA 60.906 55.000 17.19 17.19 0.00 4.26
3718 4284 0.252479 CTTGCCATCACCTCTCAGCT 59.748 55.000 0.00 0.00 0.00 4.24
3719 4285 1.375098 GCTTGCCATCACCTCTCAGC 61.375 60.000 0.00 0.00 0.00 4.26
3720 4286 1.088340 CGCTTGCCATCACCTCTCAG 61.088 60.000 0.00 0.00 0.00 3.35
3721 4287 1.078918 CGCTTGCCATCACCTCTCA 60.079 57.895 0.00 0.00 0.00 3.27
3722 4288 0.391661 TTCGCTTGCCATCACCTCTC 60.392 55.000 0.00 0.00 0.00 3.20
3723 4289 0.254178 ATTCGCTTGCCATCACCTCT 59.746 50.000 0.00 0.00 0.00 3.69
3724 4290 0.379669 CATTCGCTTGCCATCACCTC 59.620 55.000 0.00 0.00 0.00 3.85
3725 4291 0.322816 ACATTCGCTTGCCATCACCT 60.323 50.000 0.00 0.00 0.00 4.00
3726 4292 1.378531 TACATTCGCTTGCCATCACC 58.621 50.000 0.00 0.00 0.00 4.02
3727 4293 3.698029 AATACATTCGCTTGCCATCAC 57.302 42.857 0.00 0.00 0.00 3.06
3728 4294 4.717233 AAAATACATTCGCTTGCCATCA 57.283 36.364 0.00 0.00 0.00 3.07
3737 4303 9.058424 GGTAAAGTTGTCTAAAAATACATTCGC 57.942 33.333 0.00 0.00 0.00 4.70
3742 4308 8.983702 ACCAGGTAAAGTTGTCTAAAAATACA 57.016 30.769 0.00 0.00 0.00 2.29
3747 4313 9.683870 TCTTTTACCAGGTAAAGTTGTCTAAAA 57.316 29.630 21.64 7.05 38.86 1.52
3751 4317 6.896883 AGTCTTTTACCAGGTAAAGTTGTCT 58.103 36.000 21.64 15.80 38.86 3.41
3752 4318 7.712205 TGTAGTCTTTTACCAGGTAAAGTTGTC 59.288 37.037 21.64 14.29 38.86 3.18
3763 4329 5.123979 GGCAGGATTTGTAGTCTTTTACCAG 59.876 44.000 0.00 0.00 0.00 4.00
3765 4331 4.398358 GGGCAGGATTTGTAGTCTTTTACC 59.602 45.833 0.00 0.00 0.00 2.85
3769 4335 4.388577 AAGGGCAGGATTTGTAGTCTTT 57.611 40.909 0.00 0.00 0.00 2.52
3770 4336 4.388577 AAAGGGCAGGATTTGTAGTCTT 57.611 40.909 0.00 0.00 0.00 3.01
3817 4383 8.386606 GTCTACAGAAGCACATGAAAATTCTAG 58.613 37.037 0.00 0.00 0.00 2.43
3818 4384 7.877612 TGTCTACAGAAGCACATGAAAATTCTA 59.122 33.333 0.00 0.00 0.00 2.10
3825 4391 5.308014 ACAATGTCTACAGAAGCACATGAA 58.692 37.500 0.00 0.00 30.92 2.57
3826 4392 4.898320 ACAATGTCTACAGAAGCACATGA 58.102 39.130 0.00 0.00 30.92 3.07
3831 4397 4.937620 GGATTGACAATGTCTACAGAAGCA 59.062 41.667 14.97 0.00 33.15 3.91
3833 4399 7.041167 TGTTTGGATTGACAATGTCTACAGAAG 60.041 37.037 14.97 0.00 33.15 2.85
3836 4402 6.558771 TGTTTGGATTGACAATGTCTACAG 57.441 37.500 14.97 0.00 33.15 2.74
3839 4405 8.684386 TTAGTTGTTTGGATTGACAATGTCTA 57.316 30.769 14.97 7.51 37.98 2.59
3840 4406 7.581213 TTAGTTGTTTGGATTGACAATGTCT 57.419 32.000 14.97 0.00 37.98 3.41
3843 4409 8.542132 CAAGTTTAGTTGTTTGGATTGACAATG 58.458 33.333 5.14 0.00 37.98 2.82
3845 4411 6.533367 GCAAGTTTAGTTGTTTGGATTGACAA 59.467 34.615 0.00 0.00 33.67 3.18
3848 4414 5.127845 TGGCAAGTTTAGTTGTTTGGATTGA 59.872 36.000 0.00 0.00 0.00 2.57
3852 4418 3.131400 GGTGGCAAGTTTAGTTGTTTGGA 59.869 43.478 0.00 0.00 0.00 3.53


Based at the University of Bristol with support from BBSRC. BBSRC icon Bristol icon

AutoCloner maintained by Alex Coulton.